Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 5 of 13
Found at i:641340 original size:52 final size:50
Alignment explanation
Indices: 641271--641440 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
641261 AAATAACGAG
* * *
641271 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
641323 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
641376 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
641427 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
641441 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:641459 original size:28 final size:28
Alignment explanation
Indices: 641414--641495 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
641404 AGTGTTTTAA
* *
641414 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
641441 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
641468 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
641496 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:643934 original size:13 final size:13
Alignment explanation
Indices: 643916--643941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
643906 ACAAAGATCC
643916 ATGTATCGATACA
1 ATGTATCGATACA
643929 ATGTATCGATACA
1 ATGTATCGATACA
643942 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:643937 original size:33 final size:33
Alignment explanation
Indices: 643895--643961 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
643885 AAAATTTCCA
***
643895 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
643928 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
643961 A
1 A
643962 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:644005 original size:19 final size:18
Alignment explanation
Indices: 643981--644048 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
643971 CAGTAGCTAA
643981 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
644000 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
644015 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
644032 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
644049 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:644021 original size:13 final size:13
Alignment explanation
Indices: 644003--644027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
643993 ACAATACTTA
644003 TGTATCGATACAT
1 TGTATCGATACAT
644016 TGTATCGATACA
1 TGTATCGATACA
644028 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:644025 original size:32 final size:32
Alignment explanation
Indices: 643984--644046 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
643974 TAGCTAATTA
*
643984 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
644016 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
644047 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:644128 original size:21 final size:21
Alignment explanation
Indices: 644104--644160 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
644094 CATTTGTAGG
644104 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
644125 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
644146 ATGTATCGATACATT
1 ATGTATCGATACATT
644161 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:644178 original size:9 final size:9
Alignment explanation
Indices: 644159--644197 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
644149 TATCGATACA
644159 TTTAATTTT
1 TTTAATTTT
**
644168 TTTTTTTTT
1 TTTAATTTT
644177 TTTAATTTT
1 TTTAATTTT
644186 TTTAATTTT
1 TTTAATTTT
644195 TTT
1 TTT
644198 TTTCAAACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTAATTTT
Found at i:644880 original size:55 final size:55
Alignment explanation
Indices: 644796--645583 Score: 1170
Period size: 55 Copynumber: 14.3 Consensus size: 55
644786 ATAAATTGTA
* * * * * *
644796 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
644851 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
644906 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
644961 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
645016 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
645071 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
645126 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
645181 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
645236 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
645291 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
645346 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
645401 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
645456 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
645511 CCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAATTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
645566 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
645584 AAAAAGCGGA
Statistics
Matches: 687, Mismatches: 31, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 18 0.03
55 649 0.94
56 16 0.02
57 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:645180 original size:29 final size:29
Alignment explanation
Indices: 645092--645180 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
645082 GAGGACTGAA
645092 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
645121 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
645147 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
645176 AGGTG
1 AGGTG
645181 TCCTGCTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:645476 original size:26 final size:25
Alignment explanation
Indices: 645447--645538 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 25
645437 GTGTGGGCTT
645447 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTG-CCTGCTCTTTGAGGAC
** * * *
645473 TGAAAGGTGCCACCAACTTGTGTGGGC
1 TGAAAGGTGCCTGC-TCTT-TGAGGAC
*
645500 TTTAAGAGGTGCCCTGCTCTTTGAGGAC
1 -TGAA-AGGTG-CCTGCTCTTTGAGGAC
645528 TGAAAGGTGCC
1 TGAAAGGTGCC
645539 ACCAAATTGT
Statistics
Matches: 49, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
25 5 0.10
26 17 0.35
27 8 0.16
28 8 0.16
29 8 0.16
30 3 0.06
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.27
Consensus pattern (25 bp):
TGAAAGGTGCCTGCTCTTTGAGGAC
Found at i:646589 original size:13 final size:13
Alignment explanation
Indices: 646566--646603 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
646556 TTTTCTCTCT
646566 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
646580 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
646593 TTTTTTT-TTTT
1 TTTTTTTGTTTT
646604 TTTGAAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:659126 original size:28 final size:28
Alignment explanation
Indices: 659082--659135 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
659072 TCGATGATTA
659082 GAAAAAATCGGGATTGGAGTATCCCTTC
1 GAAAAAATCGGGATTGGAGTATCCCTTC
*
659110 GAAAATAA-CGGGGTTGGAGTATCCCT
1 GAAAA-AATCGGGATTGGAGTATCCCT
659136 AATTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
GAAAAAATCGGGATTGGAGTATCCCTTC
Found at i:659209 original size:28 final size:28
Alignment explanation
Indices: 659169--659240 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
659159 GGAATAAAGC
* ** *
659169 CGGGGTTGCAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
659197 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
659225 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
659241 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:659288 original size:52 final size:50
Alignment explanation
Indices: 659229--659398 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 50
659219 AAATAACGAG
* * * *
659229 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
* * *
659281 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
* *
659334 -TTGGAGTATCCCCGATTTTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
659385 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
659399 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:659417 original size:28 final size:28
Alignment explanation
Indices: 659372--659453 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
659362 AGTGTTTTAA
* *
659372 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
659399 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
659426 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
659454 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:661891 original size:13 final size:13
Alignment explanation
Indices: 661873--661898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
661863 ACAAAGATCC
661873 ATGTATCGATACA
1 ATGTATCGATACA
661886 ATGTATCGATACA
1 ATGTATCGATACA
661899 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:661894 original size:33 final size:33
Alignment explanation
Indices: 661852--661918 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
661842 AAAATTTCCA
***
661852 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
661885 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
661918 A
1 A
661919 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:661962 original size:19 final size:18
Alignment explanation
Indices: 661938--662005 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
661928 CAGTAGCTAA
661938 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
661957 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
661972 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
661989 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
662006 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:661978 original size:13 final size:13
Alignment explanation
Indices: 661960--661984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
661950 ACAATACTTA
661960 TGTATCGATACAT
1 TGTATCGATACAT
661973 TGTATCGATACA
1 TGTATCGATACA
661985 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:661982 original size:32 final size:32
Alignment explanation
Indices: 661941--662003 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
661931 TAGCTAATTA
*
661941 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
661973 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
662004 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:662087 original size:20 final size:21
Alignment explanation
Indices: 662064--662115 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
662054 TTGTAGGATG
662064 ATCGATACATTCCAC-AATGT
1 ATCGATACATTCCACAAATGT
*
662084 ATCGATACATTCTACAAATGT
1 ATCGATACATTCCACAAATGT
662105 ATCGATACATT
1 ATCGATACATT
662116 TAAATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (21 bp):
ATCGATACATTCCACAAATGT
Found at i:662134 original size:9 final size:9
Alignment explanation
Indices: 662118--662152 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
662108 GATACATTTA
662118 AATTTTTTT
1 AATTTTTTT
*
662127 -TTTTTTTT
1 AATTTTTTT
662135 AATTTTTTT
1 AATTTTTTT
662144 AATTTTTTT
1 AATTTTTTT
662153 TTTCAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
AATTTTTTT
Found at i:665303 original size:8 final size:8
Alignment explanation
Indices: 665278--665359 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 8
665268 CGTCATTCGT
665278 AAAAA-AA
1 AAAAACAA
* *
665285 AAGAAGAA
1 AAAAACAA
665293 AAAAACGAA
1 AAAAAC-AA
665302 AAATAACAA
1 AAA-AACAA
665311 AATAAACAA
1 AA-AAACAA
665320 AAAAACCAA
1 AAAAA-CAA
665329 AAAAA-AGA
1 AAAAACA-A
*
665337 GACAAACAA
1 -AAAAACAA
665346 ACAAAACAA
1 A-AAAACAA
665355 AAAAA
1 AAAAA
665360 AAGCAACAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
7 5 0.08
8 15 0.25
9 36 0.59
10 5 0.08
ACGTcount: A:0.80, C:0.11, G:0.06, T:0.02
Consensus pattern (8 bp):
AAAAACAA
Found at i:665360 original size:9 final size:9
Alignment explanation
Indices: 665291--665360 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
665281 AAAAAAGAAG
665291 AAAAAAACGA
1 AAAAAAAC-A
*
665301 AAAATAACA
1 AAAAAAACA
*
665310 AAATAAACA
1 AAAAAAACA
*
665319 AAAAAACCA
1 AAAAAAACA
*
665328 AAAAAAA-G
1 AAAAAAACA
* *
665336 AGACAAACA
1 AAAAAAACA
*
665345 AACAAAACA
1 AAAAAAACA
665354 AAAAAAA
1 AAAAAAA
665361 AGCAACAACA
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
8 5 0.11
9 33 0.73
10 7 0.16
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:665370 original size:22 final size:26
Alignment explanation
Indices: 665314--665373 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
665304 ATAACAAAAT
*
665314 AAACAAAAAAACCAAAAAAAAGAGAC
1 AAACAACAAAACCAAAAAAAAGAGAC
665340 AAACAAACAAAA-CAAAAAAAA-AG-C
1 AAAC-AACAAAACCAAAAAAAAGAGAC
665364 -AACAACAAAA
1 AAACAACAAAA
665374 AGGGTCCGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.22
23 3 0.09
24 1 0.03
25 2 0.06
26 13 0.41
27 6 0.19
ACGTcount: A:0.78, C:0.17, G:0.05, T:0.00
Consensus pattern (26 bp):
AAACAACAAAACCAAAAAAAAGAGAC
Found at i:665372 original size:30 final size:26
Alignment explanation
Indices: 665291--665374 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
665281 AAAAAAGAAG
* *
665291 AAAAAAACGAAAAATAACA-AAATAAAC
1 AAAAAAAC-AAAAA-AAAAGAAACAAAC
* *
665318 AAAAAAACCAAAAAAAAGAGACAAAC
1 AAAAAAACAAAAAAAAAGAAACAAAC
*
665344 AAACAAAACAAAAAAAAAGCAAC-AAC
1 AAA-AAAACAAAAAAAAAGAAACAAAC
665370 AAAAA
1 AAAAA
665375 GGGTCCGGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 5 0.10
26 19 0.40
27 24 0.50
ACGTcount: A:0.79, C:0.14, G:0.05, T:0.02
Consensus pattern (26 bp):
AAAAAAACAAAAAAAAAGAAACAAAC
Found at i:666872 original size:28 final size:27
Alignment explanation
Indices: 666794--666873 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
666784 CGTTCCTCAC
* *
666794 CCTTTAAAAGCCCACAAGTCAGTGGCAT
1 CCTTCAAAAG-CCACAAGTCAGTGGCAA
* *
666822 CTTTTCCAAAGCCTACAAGTCAGTGGCAA
1 C-CTTCAAAAGCC-ACAAGTCAGTGGCAA
*
666851 CCTTCAAAAGTCCACAATTCAGT
1 CCTTCAAAAG-CCACAAGTCAGT
666874 TGCACATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.24
Consensus pattern (27 bp):
CCTTCAAAAGCCACAAGTCAGTGGCAA
Found at i:666944 original size:33 final size:32
Alignment explanation
Indices: 666875--667175 Score: 256
Period size: 34 Copynumber: 9.2 Consensus size: 32
666865 CAATTCAGTT
* * **
666875 GCACATTTTTCTTTTGAAAGTCCACAACTCTATG
1 GCACCTTTTTCTTTT--AAGCCCACAACTCCGTG
* *
666909 GCACATTTTTCTTTTAAAGCCCACAGCTCCGTG
1 GCACCTTTTTCTTTT-AAGCCCACAACTCCGTG
*
666942 GCA-C----TCTTTTAAGTCCACAACTCCGTG
1 GCACCTTTTTCTTTTAAGCCCACAACTCCGTG
*
666969 GCACCTTTTTTCTTTTTTAAGTCCACAACTCCGTG
1 GCACC-TTTTTC--TTTTAAGCCCACAACTCCGTG
*
667004 GCACCTTTTTCCTTTTAAGCCCACAACTCTGTG
1 GCACCTTTTT-CTTTTAAGCCCACAACTCCGTG
667037 GCACTCTTTTTCCTTTTAAGCCCAC-ACTTCCGTG
1 GCAC-CTTTTT-CTTTTAAGCCCACAAC-TCCGTG
* *
667071 GCACTCTTTTTCCTTTTAAGTCCACAACTTCGTG
1 GCAC-CTTTTT-CTTTTAAGCCCACAACTCCGTG
* * *
667105 GCACC-TTTTCTTTTTAAGCCTACACCCCCGTG
1 GCACCTTTTTC-TTTTAAGCCCACAACTCCGTG
* * * *
667137 GCATCCCTTTTTCCTGTAAGCCCACAAGTCGGTG
1 GCA--CCTTTTTCTTTTAAGCCCACAACTCCGTG
667171 GCACC
1 GCACC
667176 CCTTTCAAAG
Statistics
Matches: 227, Mismatches: 24, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
27 18 0.08
28 7 0.03
31 1 0.00
32 25 0.11
33 45 0.20
34 97 0.43
35 34 0.15
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.36
Consensus pattern (32 bp):
GCACCTTTTTCTTTTAAGCCCACAACTCCGTG
Found at i:666979 original size:95 final size:94
Alignment explanation
Indices: 666858--667046 Score: 254
Period size: 95 Copynumber: 2.0 Consensus size: 94
666848 CAACCTTCAA
* * *
666858 AAGTCCACAATTCAGTTGCACATTTTTCTTTTGAAAGTCCACAACTCTATGGCACATTTTT-CTT
1 AAGTCCACAACTCAGTGGCACATTTTTCTTTTGAAAGTCCACAACTCCATGGCACATTTTTCCTT
*
666922 TTAAAGCCCACAGCTCCGTGGCACTCTTTT
66 TT-AAGCCCACAACTCCGTGGCACTCTTTT
* * ** * *
666952 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCT
1 AAGTCCACAACTCAGTGGCA-CATTTTTCTTTTGAAAGTCCACAACTCCATGGCACATTTTTCCT
*
667017 TTTAAGCCCACAACTCTGTGGCACTCTTTT
65 TTTAAGCCCACAACTCCGTGGCACTCTTTT
667047 TCCTTTTAAG
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
94 17 0.21
95 60 0.73
96 5 0.06
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.37
Consensus pattern (94 bp):
AAGTCCACAACTCAGTGGCACATTTTTCTTTTGAAAGTCCACAACTCCATGGCACATTTTTCCTT
TTAAGCCCACAACTCCGTGGCACTCTTTT
Found at i:667242 original size:29 final size:30
Alignment explanation
Indices: 667154--667261 Score: 107
Period size: 29 Copynumber: 3.7 Consensus size: 30
667144 TTTTTCCTGT
* *
667154 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCACACAAGTCGGTGGCAACCCTTTCAA
* * *
667183 AAGCCCACAAGTCAGTGGCAA-TC-TTCAA
1 AAGCACACAAGTCGGTGGCAACCCTTTCAA
*
667211 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCACACAAGTCGGTGGCAACCCTTTCAA
*
667240 AAGCCCACACAAGTTGGTGGCA
1 AAG--CACACAAGTCGGTGGCA
667262 TCTTCTTCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.11
28 16 0.24
29 27 0.41
31 13 0.20
32 3 0.05
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (30 bp):
AAGCACACAAGTCGGTGGCAACCCTTTCAA
Found at i:667435 original size:52 final size:51
Alignment explanation
Indices: 667265--667707 Score: 388
Period size: 52 Copynumber: 8.8 Consensus size: 51
667255 GGTGGCATCT
* *
667265 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-CCTTTGTCA
* *
667315 TCTTTAAGACCAATGTCGCTGGTCTTGAATCAGCACATTGGCACC--T-TCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-CCTTTGTCA
* *
667364 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-CCTTTGTCA
* * *
667416 TCTTTAAATCCAATGTCGCTGGCCTTGAATTAGCACATTGG-CATTT-TCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCTTTGTCA
* * * * * * ****
667465 TC-TTAAGACCGATGTCGTTAGCCTTGAATCAGTACATCGGCACCTCAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-CCTTTGTCA
* * * * * *
667516 TCTTTAAGCCCAATATCGCTGGCTTTGAATCAGCATATTAGCAC---GTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCTTTGTCA
* ** *
667564 TCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCATTATTCTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCT-TTGTCA
* * * ** *
667616 TCTTCAAGTCCAATGTCGCTGACCGTGAATCAGCACATTGGCATTCTTCTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCT-TTGTCA
* * * *
667668 TCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
667708 ACATCTTTTT
Statistics
Matches: 326, Mismatches: 53, Indels: 26
0.80 0.13 0.06
Matches are distributed among these distances:
47 1 0.00
48 69 0.21
49 82 0.25
50 10 0.03
51 6 0.02
52 158 0.48
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (51 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCTTTGTCA
Found at i:667538 original size:100 final size:101
Alignment explanation
Indices: 667257--667707 Score: 443
Period size: 100 Copynumber: 4.5 Consensus size: 101
667247 CACAAGTTGG
* * * **
667257 TGGCATCTTC-T-TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---TGTC
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCATC
* *
667317 TTTAAGACCAATGTCGCTGGTCTTGAATCAGCACAT
66 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * ***
667353 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCATC
* *
667418 TTTAAATCCAATGTCGCTGGCCTTGAATTAGCACAT
66 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * * * *
667454 TGGCATTTTCATC-TTAAGACCGATGTCGTTAGCCTTGAATCAGTACATCGGCACCTCAACCATC
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCATC
* * * *
667518 TTTAAGCCCAATATCGCTGGCTTTGAATCAGCATAT
66 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
667554 TAGCA-CGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA--TTATTCTCA
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTA-AC-CA
* * *
667616 TCTTCAAGTCCAATGTCGCTGACCGTGAATCAGCACAT
64 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
667654 TGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TGGCA-TC-T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
667708 ACATCTTTTT
Statistics
Matches: 287, Mismatches: 56, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
96 9 0.03
97 1 0.00
98 45 0.16
99 6 0.02
100 142 0.49
101 45 0.16
102 1 0.00
104 38 0.13
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCATC
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:668450 original size:13 final size:13
Alignment explanation
Indices: 668432--668458 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
668422 AATTACTCAA
668432 TGTATCGATACAT
1 TGTATCGATACAT
668445 TGTATCGATACAT
1 TGTATCGATACAT
668458 T
1 T
668459 ATGAAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:673820 original size:32 final size:32
Alignment explanation
Indices: 673760--673821 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
673750 TAAGACAATG
*
673760 TATCGATACAATTCCTCATGTATCGATACATT
1 TATCGATACAATTCCTCATATATCGATACATT
* *
673792 TATCGATACAATATGC-CATATATTGATACA
1 TATCGATACAAT-TCCTCATATATCGATACA
673822 AACCGTGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (32 bp):
TATCGATACAATTCCTCATATATCGATACATT
Found at i:673895 original size:19 final size:20
Alignment explanation
Indices: 673851--673899 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
673841 CTACTAGTTT
**
673851 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
673871 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
673890 CATGTATCGA
1 CATGTATCGA
673900 CAAATGTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:675350 original size:2 final size:2
Alignment explanation
Indices: 675343--675388 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
675333 GCCGACTAAC
675343 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
675385 TA TA
1 TA TA
675389 ATTAGGCAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:675443 original size:2 final size:2
Alignment explanation
Indices: 675436--675463 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
675426 GCCGACTAAC
675436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
675464 AGCGTGGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:676269 original size:23 final size:24
Alignment explanation
Indices: 676243--676288 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
676233 ATAAATTTAA
676243 ATATTTAAATTTA-ATTTTAATTC
1 ATATTTAAATTTATATTTTAATTC
* *
676266 ATATTTTAATTTATTTTTTAATT
1 ATATTTAAATTTATATTTTAATT
676289 TTATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATATTTAAATTTATATTTTAATTC
Found at i:676271 original size:12 final size:12
Alignment explanation
Indices: 676243--676310 Score: 75
Period size: 13 Copynumber: 5.6 Consensus size: 12
676233 ATAAATTTAA
*
676243 ATATTTAAATTT
1 ATATTTTAATTT
*
676255 A-ATTTTAATTC
1 ATATTTTAATTT
676266 ATATTTTAATTT
1 ATATTTTAATTT
*
676278 ATTTTTTAATTTT
1 ATATTTTAA-TTT
676291 ATATTTTATATTT
1 ATATTTTA-ATTT
*
676304 TTATTTT
1 ATATTTT
676311 TAATAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
11 9 0.19
12 18 0.38
13 19 0.40
14 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTTTAATTT
Found at i:676321 original size:15 final size:14
Alignment explanation
Indices: 676273--676334 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 14
676263 TTCATATTTT
676273 AATTTATTTTT-TA
1 AATTTATTTTTATA
*
676286 ATTTTATATTTTATA
1 AATTTAT-TTTTATA
**
676301 TTTTTATTTTTAATA
1 AATTTATTTTT-ATA
*
676316 AATTTA-TTTAATA
1 AATTTATTTTTATA
676329 AATTTA
1 AATTTA
676335 AATTTTCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
13 15 0.37
14 11 0.27
15 15 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
AATTTATTTTTATA
Found at i:680083 original size:26 final size:26
Alignment explanation
Indices: 680047--680098 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
680037 GAGCACCACC
680047 TCCCATGGGCTTATATTTTACATATA
1 TCCCATGGGCTTATATTTTACATATA
680073 TCCCATGGGCTTATATTTTACATATA
1 TCCCATGGGCTTATATTTTACATATA
680099 GAAGAGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (26 bp):
TCCCATGGGCTTATATTTTACATATA
Found at i:683032 original size:16 final size:16
Alignment explanation
Indices: 682985--683032 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
682975 AATGATGATA
682985 AAAAGA-ATAAAATAT
1 AAAAGATATAAAATAT
* ***
683000 AAAATATATATTTTAT
1 AAAAGATATAAAATAT
683016 AAAAGATATAAAATAT
1 AAAAGATATAAAATAT
683032 A
1 A
683033 TATTTTATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
AAAAGATATAAAATAT
Found at i:686163 original size:50 final size:51
Alignment explanation
Indices: 686056--686168 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 51
686046 AAATAACGAG
* * *
686056 TTGGAGTATCCCCGATGGTGAGAAATCGATATTTTGGAAATCAAAATAGGG
1 TTGGAGTATCCCCGATGGTGAGAAATCAATATTTGGGAAATCAAAATAGGA
* * *
686107 TTGGAGTATCCTCGATGGTGCA-AAGTCAATATTTGGGAAAT-AAAATTGGA
1 TTGGAGTATCCCCGATGGTG-AGAAATCAATATTTGGGAAATCAAAATAGGA
686157 TTGGAGTATCCC
1 TTGGAGTATCCC
686169 TTCAAAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 18 0.33
51 35 0.65
52 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
TTGGAGTATCCCCGATGGTGAGAAATCAATATTTGGGAAATCAAAATAGGA
Found at i:686236 original size:57 final size:57
Alignment explanation
Indices: 686148--686265 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 57
686138 TTTGGGAAAT
* * * *
686148 AAAATTGGATTGGAGTATCCCTTCAAAAATAA-TAGGGTTAGAGTATCCCCGATGGTG
1 AAAATAGGATTGGAGTATCCCCTCAAAAATAACTA-GATTAGAGTATCCCCAATGGTG
* *
686205 AAAATAGGGTTGGAGTATCCCCTCGAAAATAACTAGATTAGAGTATCCCCAATGGTG
1 AAAATAGGATTGGAGTATCCCCTCAAAAATAACTAGATTAGAGTATCCCCAATGGTG
686262 AAAA
1 AAAA
686266 ATCAATGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 52 0.96
58 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (57 bp):
AAAATAGGATTGGAGTATCCCCTCAAAAATAACTAGATTAGAGTATCCCCAATGGTG
Found at i:686303 original size:79 final size:79
Alignment explanation
Indices: 686211--686759 Score: 538
Period size: 79 Copynumber: 7.0 Consensus size: 79
686201 GGTGAAAATA
** * *
686211 GGGTTGGAGTATCCCCTCGAAAATAACTAGATTAGAGTATCCCCAATGGTGAAAAATCAATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCTCGATGGTGAAAAATCAATGTTT
*
686276 TAGAAATAAAATTG
66 TAGAAATAAAATCG
* * * *
686290 GGGTTGGAGTATCCCCTCTG-AAATAACAAGG-TTGGAGCAT-CTCGATGGTGAAAAATCAAAGT
1 GGGTTGGAGTATCCCCTC-GAAAATAAC-GGGATTAGAGTATCCTCGATGGTGAAAAATCAATGT
*
686352 TTTAGAAATAAAATCA
64 TTTAGAAATAAAATCG
* * ** * * **
686368 GAGTTGGAGTAT-CTCTTTAGAAATAAAGGGATTAGAGTATTCCT-GATGGTGGAAAATTTATGT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGATTAGAGTA-TCCTCGATGGTGAAAAATCAATGT
*
686431 TTTAAAAATAAAATCG
64 TTTAGAAATAAAATCG
** * * *
686447 ATGTTGGAGTATCCCCTC-AAATATAACGGGGTTAGAGTATCCTCGATGGTGGAAAATCGATGTT
1 GGGTTGGAGTATCCCCTCGAAA-ATAACGGGATTAGAGTATCCTCGATGGTGAAAAATCAATGTT
*
686511 TTGGAAATAAAATCG
65 TTAGAAATAAAATCG
* * * * * *
686526 AGGTTAGAGTATCTCCTC-AGAAATAACGGGATTAGAGTATTCTCGATAGTGGAAAATCAATGTT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGATTAGAGTATCCTCGATGGTGAAAAATCAATGTT
* *
686590 TTAGAAATAAAACCA
65 TTAGAAATAAAATCG
* * * * * * ***
686605 GAGTTGGAGTATCTCCTCAAAAATAATGGGGTTGGAGTATCCTCGATGGTGAAAAATGGGTGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCTCGATGGTGAAAAATCAATGTTT
686670 TAGAAATAAAATCG
66 TAGAAATAAAATCG
* * * * * * *
686684 AGGTTGGAGTATCCTCTCGAAAATAACAGGATTGGAGTATCCCCGATGGT-AGAAAATCGATATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCTCGATGGTGA-AAAATCAATGTT
686748 TTAGAAATAAAA
65 TTAGAAATAAAA
686760 ACATCAATGA
Statistics
Matches: 388, Mismatches: 69, Indels: 26
0.80 0.14 0.05
Matches are distributed among these distances:
77 5 0.01
78 63 0.16
79 310 0.80
80 10 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCTCGATGGTGAAAAATCAATGTTT
TAGAAATAAAATCG
Found at i:686558 original size:158 final size:156
Alignment explanation
Indices: 686212--686759 Score: 629
Period size: 158 Copynumber: 3.5 Consensus size: 156
686202 GTGAAAATAG
* ** * *
686212 GGTTGGAGTATCCCCTCGAAAATAACTAGATTAGAGTATCCCCAATGGTGAAAAATCAATGTTTT
1 GGTTGGAGTATCTCCTCGAAAATAACGGGATTAGAGTATCCCCGATGGTGGAAAATCAATGTTTT
* * * ** *
686277 AGAAATAAAATTGGGGTTGGAGTATCCCCTCTGAAATAACAAGGTTGGAGCAT-CTCGATGGTGA
66 AGAAATAAAA-TCGAGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTATCCTCGATGGTGA
* *
686341 AAAATCAAAGTTTTAGAAATAAAATC-A
129 AAAATCGATGTTTTAGAAATAAAATCGA
** * * * **
686368 GAGTTGGAGTATCT-CTTTAGAAATAAAGGGATTAGAGTATTCCTGATGGTGGAAAATTTATGTT
1 G-GTTGGAGTATCTCCTCGA-AAATAACGGGATTAGAGTATCCCCGATGGTGGAAAATCAATGTT
* *
686432 TTAAAAATAAAATCGATGTTGGAGTATCCCCTCAAATATAACGGGGTTAGAGTATCCTCGATGGT
64 TTAGAAATAAAATCGA-GTTGGAGTATCCCCTCAAA-ATAACGGGGTTGGAGTATCCTCGATGGT
* *
686497 GGAAAATCGATGTTTTGGAAATAAAATCGA
127 GAAAAATCGATGTTTTAGAAATAAAATCGA
* * * *
686527 GGTTAGAGTATCTCCTC-AGAAATAACGGGATTAGAGTATTCTCGATAGTGGAAAATCAATGTTT
1 GGTTGGAGTATCTCCTCGA-AAATAACGGGATTAGAGTATCCCCGATGGTGGAAAATCAATGTTT
* * *
686591 TAGAAATAAAACCAGAGTTGGAGTATCTCCTCAAAAATAATGGGGTTGGAGTATCCTCGATGGTG
65 TAGAAATAAAATC-GAGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTATCCTCGATGGTG
* *
686656 AAAAATGGGTGTTTTAGAAATAAAATCGA
128 AAAAATCGATGTTTTAGAAATAAAATCGA
* * * * *
686685 GGTTGGAGTATC-CTCTCGAAAATAACAGGATTGGAGTATCCCCGATGGTAGAAAATCGATATTT
1 GGTTGGAGTATCTC-CTCGAAAATAACGGGATTAGAGTATCCCCGATGGTGGAAAATCAATGTTT
686749 TAGAAATAAAA
65 TAGAAATAAAA
686760 ACATCAATGA
Statistics
Matches: 331, Mismatches: 50, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
156 8 0.02
157 88 0.27
158 225 0.68
159 10 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (156 bp):
GGTTGGAGTATCTCCTCGAAAATAACGGGATTAGAGTATCCCCGATGGTGGAAAATCAATGTTTT
AGAAATAAAATCGAGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAA
AATCGATGTTTTAGAAATAAAATCGA
Found at i:686671 original size:237 final size:236
Alignment explanation
Indices: 686212--686759 Score: 708
Period size: 237 Copynumber: 2.3 Consensus size: 236
686202 GTGAAAATAG
* * *
686212 GGTTGGAGTATCCCCTCGAAAATAACTA-GATTAGAGTATCCCCAATGGTGAAAAATCAATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAAC-AGGATTAGAGTATCCCCGATGGTGGAAAATCGATGTTT
* * * * * *
686276 TAGAAATAAAATTGGGGTTGGAGTATCCCCTCTGAAATAACAAGGTTGGAGCATCTCGATGGTGA
65 TAGAAATAAAATCGAGGTTAGAGTATCCCCTCAGAAATAACAAGGTTAGAGCATCTCGATAGTGA
* * * *
686341 AAAATCAAAGTTTTAGAAATAAAATCAGAGTTGGAGTATCTCTTTAGAAATAAAGGGATTAGAGT
130 AAAATCAAAGTTTTAGAAATAAAACCAGAGTTGGAGTATCTCCTCAAAAATAAAGGGATTAGAGT
* **
686406 ATTCCTGATGGTGGAAAATTTATGTTTTAAAAATAAAATCGA
195 ATTCCTGATGGTGAAAAATGGATGTTTTAAAAATAAAATCGA
* * * *
686448 TGTTGGAGTATCCCCTC-AAATATAACGGGGTTAGAGTATCCTCGATGGTGGAAAATCGATGTTT
1 GGTTGGAGTATCCCCTCGAAA-ATAACAGGATTAGAGTATCCCCGATGGTGGAAAATCGATGTTT
* * * *
686512 TGGAAATAAAATCGAGGTTAGAGTATCTCCTCAGAAATAAC-GGGATTAGAGTATTCTCGATAGT
65 TAGAAATAAAATCGAGGTTAGAGTATCCCCTCAGAAATAACAAGG-TTAGAGCA-TCTCGATAGT
* * * * *
686576 GGAAAATCAATGTTTTAGAAATAAAACCAGAGTTGGAGTATCTCCTCAAAAATAATGGGGTTGGA
128 GAAAAATCAAAGTTTTAGAAATAAAACCAGAGTTGGAGTATCTCCTCAAAAATAAAGGGATTAGA
* *
686641 GTA-TCCTCGATGGTGAAAAATGGGTGTTTTAGAAATAAAATCGA
193 GTATTCCT-GATGGTGAAAAATGGATGTTTTAAAAATAAAATCGA
* * * *
686685 GGTTGGAGTATCCTCTCGAAAATAACAGGATTGGAGTATCCCCGATGGTAGAAAATCGATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGTATCCCCGATGGTGGAAAATCGATGTTTT
686750 AGAAATAAAA
66 AGAAATAAAA
686760 ACATCAATGA
Statistics
Matches: 266, Mismatches: 40, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
235 5 0.02
236 97 0.36
237 161 0.61
238 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (236 bp):
GGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGTATCCCCGATGGTGGAAAATCGATGTTTT
AGAAATAAAATCGAGGTTAGAGTATCCCCTCAGAAATAACAAGGTTAGAGCATCTCGATAGTGAA
AAATCAAAGTTTTAGAAATAAAACCAGAGTTGGAGTATCTCCTCAAAAATAAAGGGATTAGAGTA
TTCCTGATGGTGAAAAATGGATGTTTTAAAAATAAAATCGA
Found at i:688305 original size:8 final size:8
Alignment explanation
Indices: 688292--688316 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
688282 AAAACCACAA
688292 GAATGCAT
1 GAATGCAT
688300 GAATGCAT
1 GAATGCAT
688308 GAATGCAT
1 GAATGCAT
688316 G
1 G
688317 GGAGTCCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (8 bp):
GAATGCAT
Found at i:689194 original size:20 final size:21
Alignment explanation
Indices: 689167--689223 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
689157 GTTAAAACCC
689167 AGATGTATCGATACAATGATA
1 AGATGTATCGATACAATGATA
* *
689188 A-ATGTATCAATACAATTATA
1 AGATGTATCGATACAATGATA
689208 AGTATGTATCGATACA
1 AG-ATGTATCGATACA
689224 TTTACTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.58
21 1 0.03
22 12 0.39
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (21 bp):
AGATGTATCGATACAATGATA
Found at i:689854 original size:78 final size:76
Alignment explanation
Indices: 689682--689854 Score: 163
Period size: 78 Copynumber: 2.2 Consensus size: 76
689672 CTCAATGTTA
* * * * * *
689682 TATCAGTTTTAATGCAAAATTACTAAAAAATCCTAAAAAAGACATGTTTGACATGGAAGTGCTAC
1 TATCAGTTTTAATG-GAAATCACTAAAAAATCCTAAAAAAGACATGCTTGAAATGAAAATGCTAC
689747 ATAATCTTAAAG
65 ATAATCTTAAAG
* * **
689759 -AACTTGTTTTAATATGGAAATCACTAAAATAATCC-CCAAAAGACATGCTTGAAATGAAAATGC
1 TATC-AGTTTT-A-ATGGAAATCACTAAAA-AATCCTAAAAAAGACATGCTTGAAATGAAAATGC
689822 TACATGAA-CTTAAATG
62 TACAT-AATCTTAAA-G
689838 TATCAGTTTTACATGGA
1 TATCAGTTTTA-ATGGA
689855 CATTCCCAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
76 2 0.03
77 5 0.07
78 51 0.67
79 16 0.21
80 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (76 bp):
TATCAGTTTTAATGGAAATCACTAAAAAATCCTAAAAAAGACATGCTTGAAATGAAAATGCTACA
TAATCTTAAAG
Found at i:691206 original size:42 final size:41
Alignment explanation
Indices: 691148--691226 Score: 149
Period size: 42 Copynumber: 1.9 Consensus size: 41
691138 AAAATAATAC
691148 ATGAAAGCCTATATACATTAGGTGGAAATTAAGATAAGTGT
1 ATGAAAGCCTATATACATTAGGTGGAAATTAAGATAAGTGT
691189 ATGAAAGGCCTATATACATTAGGTGGAAATTAAGATAA
1 ATGAAA-GCCTATATACATTAGGTGGAAATTAAGATAA
691227 AAGCATGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
41 6 0.16
42 31 0.84
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.28
Consensus pattern (41 bp):
ATGAAAGCCTATATACATTAGGTGGAAATTAAGATAAGTGT
Found at i:691235 original size:42 final size:42
Alignment explanation
Indices: 691147--691237 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
691137 AAAAATAATA
**
691147 CATGAAA-GCCTATATACATTAGGTGGAAATTAAGATAAGTG
1 CATGAAAGGCCTATATACATTAGGTGGAAATTAAGATAAAAG
*
691188 TATGAAAGGCCTATATACATTAGGTGGAAATTAAGATAAAAG
1 CATGAAAGGCCTATATACATTAGGTGGAAATTAAGATAAAAG
691230 CATGAAAG
1 CATGAAAG
691238 CCATGTGGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 6 0.13
42 39 0.87
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (42 bp):
CATGAAAGGCCTATATACATTAGGTGGAAATTAAGATAAAAG
Found at i:696338 original size:51 final size:52
Alignment explanation
Indices: 696219--696339 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
696209 GAGATAATAA
* *
696219 CGAGGTTAGAGTATCCCCGATTATGGGAAAACAGTGTTCTAAAAAATAAAAT
1 CGAGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAC
* * ** * *
696271 CGGGGTTAAAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAAC
1 CGAGGTTAGAGTATCCCCGATTATGGAAAAACAG-TGTTCTAAAAAATAAAAC
*
696322 CGAGGTTGGAGTATCCCC
1 CGAGGTTAGAGTATCCCC
696340 TCGGAAATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
51 31 0.54
52 26 0.46
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (52 bp):
CGAGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAC
Found at i:696368 original size:79 final size:79
Alignment explanation
Indices: 696271--696500 Score: 372
Period size: 78 Copynumber: 2.9 Consensus size: 79
696261 AAAATAAAAT
** * * *
696271 CGGGGTTAAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
*
696336 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
696350 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAGATAAAACC-AGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
696414 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
696428 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
696493 CCCCTCGA
66 CCCCTCGA
696501 TTAAAGGAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 75 0.54
79 65 0.46
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:696495 original size:51 final size:51
Alignment explanation
Indices: 696428--696553 Score: 141
Period size: 53 Copynumber: 2.4 Consensus size: 51
696418 TCGAAAATAA
* *
696428 CGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAATATTTT-AGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATT-TAAAGAAATTAATATTTTGA-AAATAAAAC
** *
696479 CGGGGTTGGAGTATCCCCTCGA-TTAAAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTAT-CCC-CGATTTAAA-GAAATTAATATTTTGAAAATAAAAC
696532 CGGGGTTGGAGTATCCCCGATT
1 CGGGGTTGGAGTATCCCCGATT
696554 ACGAGCAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
51 20 0.31
52 8 0.12
53 35 0.55
54 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTTAAAGAAATTAATATTTTGAAAATAAAAC
Found at i:697874 original size:62 final size:61
Alignment explanation
Indices: 697788--697906 Score: 202
Period size: 62 Copynumber: 1.9 Consensus size: 61
697778 GAAAATCACT
697788 CCATGCCTTCATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATTATC
1 CCATGCCTTCATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATTATC
* * *
697849 CCATGTCTTCAATTTTTTATTCCATGCCCATGTCTTCATTTTTTTATTCCATGCCCAT
1 CCATGCCTTC-ATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCAT
697907 GCCTTCATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
61 9 0.17
62 45 0.83
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.46
Consensus pattern (61 bp):
CCATGCCTTCATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATTATC
Found at i:697881 original size:27 final size:27
Alignment explanation
Indices: 697788--698046 Score: 274
Period size: 27 Copynumber: 9.1 Consensus size: 27
697778 GAAAATCACT
*
697788 CCATGCCTTC-ATTTCTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
*
697814 CCATGCCTTCATTTTTTTATTCCATGCCCATTATC
1 CCATGCCTTCAATTTTTTATTCCATG--------C
*
697849 CCATGTCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
* *
697876 CCATGTCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
697903 CCATGCCTTC-ATTTTTTATTCCATGCCCATTATC
1 CCATGCCTTCAATTTTTTATTCCATG--------C
*
697937 CCATGTCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
*
697964 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
*
697991 CCATACCTTC-ATTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
698017 CCATGCCTTC-ATTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTTATTCCATGC
698043 CCAT
1 CCAT
698047 CATCCCGTGT
Statistics
Matches: 202, Mismatches: 13, Indels: 36
0.80 0.05 0.14
Matches are distributed among these distances:
26 68 0.34
27 84 0.42
34 10 0.05
35 40 0.20
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.46
Consensus pattern (27 bp):
CCATGCCTTCAATTTTTTATTCCATGC
Found at i:697889 original size:88 final size:88
Alignment explanation
Indices: 697788--698020 Score: 423
Period size: 88 Copynumber: 2.6 Consensus size: 88
697778 GAAAATCACT
*
697788 CCATGCCTTCA-TTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATTATCCCA
1 CCATGCCTTCATTTTTTTATTCCATGCCCATGCCTTCA-TTTTTTATTCCATGCCCATTATCCCA
697852 TGTCTTCAATTTTTTATTCCATGC
65 TGTCTTCAATTTTTTATTCCATGC
*
697876 CCATGTCTTCATTTTTTTATTCCATGCCCATGCCTTCATTTTTTATTCCATGCCCATTATCCCAT
1 CCATGCCTTCATTTTTTTATTCCATGCCCATGCCTTCATTTTTTATTCCATGCCCATTATCCCAT
697941 GTCTTCAATTTTTTATTCCATGC
66 GTCTTCAATTTTTTATTCCATGC
*
697964 CCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTATTCCATGCCCAT
1 CCATGCCTTCATTTTTTTATTCCATGCCCATGCCTTCATTTTTTATTCCATGCCCAT
698021 GCCTTCATTT
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
88 115 0.82
89 25 0.18
ACGTcount: A:0.17, C:0.30, G:0.06, T:0.46
Consensus pattern (88 bp):
CCATGCCTTCATTTTTTTATTCCATGCCCATGCCTTCATTTTTTATTCCATGCCCATTATCCCAT
GTCTTCAATTTTTTATTCCATGC
Found at i:697947 original size:34 final size:35
Alignment explanation
Indices: 697902--697967 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
697892 TTATTCCATG
697902 CCCATGCCTTC-ATTTTTTATTCCATGCCCATTAT
1 CCCATGCCTTCAATTTTTTATTCCATGCCCATTAT
*
697936 CCCATGTCTTCAATTTTTTATTCCATGCCCAT
1 CCCATGCCTTCAATTTTTTATTCCATGCCCAT
697968 GCCTTCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.18, C:0.32, G:0.06, T:0.44
Consensus pattern (35 bp):
CCCATGCCTTCAATTTTTTATTCCATGCCCATTAT
Found at i:698059 original size:26 final size:27
Alignment explanation
Indices: 697948--698052 Score: 110
Period size: 26 Copynumber: 4.0 Consensus size: 27
697938 CATGTCTTCA
* *
697948 ATTTTTTATTCCATGCCCATGCCT-TC
1 ATTTTTTATTCCATGCCCATGCATCCC
* * *
697974 ATTTTTTTATTCCATGCCCATACCT-TC
1 A-TTTTTTATTCCATGCCCATGCATCCC
* *
698001 ATTTTTTATTCCATGCCCATGCCT-TC
1 ATTTTTTATTCCATGCCCATGCATCCC
698027 ATTTTTTATTCCATGCCCAT-CATCCC
1 ATTTTTTATTCCATGCCCATGCATCCC
698053 GTGTTTTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 2 0.03
26 46 0.63
27 25 0.34
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (27 bp):
ATTTTTTATTCCATGCCCATGCATCCC
Found at i:698059 original size:27 final size:26
Alignment explanation
Indices: 697860--698051 Score: 106
Period size: 26 Copynumber: 7.0 Consensus size: 26
697850 CATGTCTTCA
*
697860 ATTTTTTATTCCATGCCCATGTC-TTC
1 ATTTTTTATTCCATGCCCATG-CATCC
* *
697886 ATTTTTTTATTCCATGCCCATGCCTTC
1 A-TTTTTTATTCCATGCCCATGCATCC
*
697913 ATTTTTTATTCCATGCCCAT-TATCCC
1 ATTTTTTATTCCATGCCCATGCAT-CC
** *
697939 ATGTCTTCAATT-TTTTAT-TCCATGCCCATGCCTTC
1 AT-T-TT---TTATTCCATGCCCATG--CAT--C--C
* * *
697974 ATTTTTTTATTCCATGCCCATACCTTC
1 A-TTTTTTATTCCATGCCCATGCATCC
* *
698001 ATTTTTTATTCCATGCCCATGCCTTC
1 ATTTTTTATTCCATGCCCATGCATCC
698027 ATTTTTTATTCCATGCCCAT-CATCC
1 ATTTTTTATTCCATGCCCATGCATCC
698052 CGTGTTTTTT
Statistics
Matches: 133, Mismatches: 16, Indels: 35
0.72 0.09 0.19
Matches are distributed among these distances:
25 4 0.03
26 68 0.51
27 27 0.20
28 2 0.02
29 4 0.03
30 4 0.03
31 6 0.05
32 6 0.05
33 6 0.05
34 2 0.02
35 3 0.02
36 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.06, T:0.47
Consensus pattern (26 bp):
ATTTTTTATTCCATGCCCATGCATCC
Found at i:698060 original size:53 final size:52
Alignment explanation
Indices: 697848--698046 Score: 231
Period size: 53 Copynumber: 3.6 Consensus size: 52
697838 TGCCCATTAT
* * * *
697848 CCCATGTCTTCAATTTTTTATTCCATGCCCATGTCTTCATTTTTTTATTCCATG
1 CCCATGCCTTCATTTTTTTATTCCATGCCCAT-ACCTCA-TTTTTTATTCCATG
697902 CCCATGCCTTCA-TTTTTTATTCCATGCCCATTATCCCATGTCTTCAATTTTTTATTCCATG
1 CCCATGCCTTCATTTTTTTATTCCATGCCCA-TA---C----C-TC-ATTTTTTATTCCATG
697963 CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTATTCCATG
1 CCCATGCCTTCATTTTTTTATTCCATGCCCATACC-TCATTTTTTATTCCATG
698016 CCCATGCCTTCA-TTTTTTATTCCATGCCCAT
1 CCCATGCCTTCATTTTTTTATTCCATGCCCAT
698047 CATCCCGTGT
Statistics
Matches: 131, Mismatches: 3, Indels: 24
0.83 0.02 0.15
Matches are distributed among these distances:
52 19 0.15
53 45 0.34
54 16 0.12
56 1 0.01
58 1 0.01
61 30 0.23
62 19 0.15
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.47
Consensus pattern (52 bp):
CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTCATTTTTTATTCCATG
Found at i:698349 original size:173 final size:171
Alignment explanation
Indices: 698056--698392 Score: 561
Period size: 173 Copynumber: 2.0 Consensus size: 171
698046 TCATCCCGTG
* *
698056 TTTTTTTATTTCTTGATTTTTAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAGCCTCC
1 TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAGCCTCC
* *
698121 GAGAAAACCTTAAAAAAACATTGACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTTGG
66 GAGAAAACCTTAAAAAAACATCGACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTCGG
*
698186 TCAGTTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
131 TCAATTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
*
698227 TTTTTTTATTCCTTGATTTTCAAA-CGAAAATTAGCTCGATTAATTGCGACTTCTCCG-GACCTC
1 TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAG-CCTC
*
698290 CGAGAAAAGCTTGAAAAAAAAACATCGACTGATGCAATTTACTCTTATCCGATAAAAATGAATAT
65 CGAGAAAACCTT---AAAAAAACATCGACTGATGCAATTTACTCTTATCCGATAAAAATGAATAT
698355 TCGGTCAATTATGAAATCTCGGATATCCAAAATTTCAA
127 TCGGTCAATTATGAAATCTCGGATATCCAAAATTTCAA
698393 GAAAATGACC
Statistics
Matches: 155, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
169 1 0.01
170 47 0.30
171 22 0.14
173 85 0.55
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (171 bp):
TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAGCCTCC
GAGAAAACCTTAAAAAAACATCGACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTCGG
TCAATTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
Found at i:698948 original size:42 final size:41
Alignment explanation
Indices: 698858--698990 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 41
698848 TTTTTTTTTT
* * *
698858 TTTGAGGACAAAGAAAAAGAGAGTGAA-ATAG-GTCCTGCTC
1 TTTGAGGACAAAGGAAAAGAGAG-AAAGAAAGTGTCCTGCTC
* *
698898 CTTGAGGACAAAGGAAAAGA-AGACAAGGAAAGTGTCCTGCTT
1 TTTGAGGACAAAGGAAAAGAGAGA-AA-GAAAGTGTCCTGCTC
* *
698940 TTTGAGGACAAAATGAAAA-AGAGAAAGAAGTGTGTCCTGCTC
1 TTTGAGGAC-AAAGGAAAAGAGAGAAAGAA-AGTGTCCTGCTC
698982 TTTGAGGAC
1 TTTGAGGAC
698991 TAGGAAGTGC
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
39 4 0.05
40 18 0.23
41 6 0.08
42 38 0.49
43 11 0.14
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (41 bp):
TTTGAGGACAAAGGAAAAGAGAGAAAGAAAGTGTCCTGCTC
Found at i:699131 original size:60 final size:59
Alignment explanation
Indices: 699028--699983 Score: 1003
Period size: 60 Copynumber: 16.4 Consensus size: 59
699018 TTTAAAGGCA
* * *
699028 TCCTGCTGTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTG-AAAAAGAAAGCG
* *
699089 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAGATGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAA-A-GCG
* * * *
699149 TCCTGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTGTGGGCTTT-AAAAAGAAAAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAG----AAAGCG
** * * *
699211 TCCTGCTCTTTGAGGACTGGAAAATGCCGCTAACTTGTGTGGGCTTTG-----GAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
* * * *
699266 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAA-AAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
699325 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTG---AAG---GCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
* *
699378 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAA-AAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-GAAAAAGAAAGCG
699438 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTG---AAG---GCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
* *
699491 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTG-AAAAAGAAAGCG
* ** *
699552 TCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-AAGAAA-GCG
* * * *
699613 TCCTGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTGTGGGCTTT-AAAAA-AAAGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
** * *
699670 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-----AGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
* * *
699725 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAAAAAAGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
** * *
699784 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-----AGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
* * *
699839 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGGAAAAAGTTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAA--AGAAAG-CG
* * *
699901 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAA-A-GCG
*
699961 TCCTGCTCTTTGAGGACTAAAGG
1 TCCTGCTCTTTGAGGACTGAAGG
699984 GTGAAAGGAG
Statistics
Matches: 767, Mismatches: 76, Indels: 105
0.81 0.08 0.11
Matches are distributed among these distances:
53 42 0.05
54 58 0.08
55 140 0.18
57 21 0.03
58 66 0.09
59 101 0.13
60 157 0.20
61 116 0.15
62 40 0.05
63 24 0.03
64 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCG
Found at i:699370 original size:113 final size:112
Alignment explanation
Indices: 698974--699946 Score: 1270
Period size: 114 Copynumber: 8.4 Consensus size: 112
698964 AAGAAGTGTG
* * *
698974 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAGGCATCCTGCTGTT
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGCGTCCTGCTCTT
699038 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGCAAAAAGAAAGCA
64 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTG-AAAAA-AAAGCA
*
699089 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGATGTGTCCTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAG--GCGTCCTG
* * * * **
699154 CTCTTTGAGGACT-AAAGGTGCCACTAACTCGTGTGGGCTTTAAAAAGAAAAAAAGTG
59 CTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTT---GA-AAAAAAAGCA
** * * *
699211 TCCTGCTCTTTGAGGACTGGAAAATGCCGCTAACTTGTGTGGGCTTTGGAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGCGTCCTGCTCTT
*
699276 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAAAAGCA
64 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAGCA
699325 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGCGTCCTGCTCTTTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGCGTCCTGCTCTTTG
699390 AGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAAAAAGCA
66 AGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTT-GAAAAAAAAGCA
699438 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGCGTCCTGCTCTTTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGCGTCCTGCTCTTTG
*
699503 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCA
66 AGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTG--AAAAAAAAGCA
* *
699552 TCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGGGAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGC-TT----T--G-AAGGCGTCCT
* * * **
699617 GCTCTTTGAGGACT-AAAGGTGCCACTAACTCGTGTGGGCTTT-AAAAAAAAGTG
58 GCTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAGCA
** *
699670 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAGAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGCGTCCTGCTCTT
* **
699735 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAAAAAGTG
64 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAGCA
** *
699784 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAGAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGCGTCCTGCTCTT
* **
699849 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAGTTG
64 TGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAA--AAAAAG-CA
*
699901 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT
699947 AAAAGGAAGA
Statistics
Matches: 778, Mismatches: 49, Indels: 61
0.88 0.06 0.07
Matches are distributed among these distances:
112 77 0.10
113 163 0.21
114 221 0.28
115 20 0.03
116 30 0.04
117 39 0.05
118 53 0.07
119 31 0.04
120 25 0.03
121 45 0.06
122 46 0.06
123 28 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (112 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGCGTCCTGCTCTTTG
AGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAGCA
Found at i:700063 original size:99 final size:99
Alignment explanation
Indices: 699899--700082 Score: 327
Period size: 99 Copynumber: 1.9 Consensus size: 99
699889 AGGAAAAAGT
*
699899 TGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCC
1 TGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAGAGGTGTCC
699964 TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAG
66 TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAG
699998 TGTCCTGCTCTTTGAGGACTAGCAA-GTGCCACCAACTTATGTGGGCTTTAAAA-GAAGAGGTGT
1 TGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAGAGGTGT
700061 CCTGCTCTTTGAGGACTAAAGG
64 CCTGCTCTTTGAGGACTAAAGG
700083 TGCCACTAAC
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
99 53 0.65
100 27 0.33
101 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (99 bp):
TGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAGAGGTGTCC
TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAG
Found at i:700111 original size:60 final size:59
Alignment explanation
Indices: 699987--700143 Score: 199
Period size: 61 Copynumber: 2.6 Consensus size: 59
699977 CTAAAGGGTG
* *
699987 AAAGGAGAGAGTGTCCTGCTCTTTGAGGACTAGCAA-GTGCCACCAACTTATGTGGGCTTTA
1 AAAGAAGAG-GTGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTCATGTGGGCTTTA
* *
700048 AAAGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTGTGGGCTTTAA
1 AAAGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTT-A
* * *
700108 AAAGAAAAAGTTGTCCTGCTCTTTGAGGACTGAAGG
1 AAAG-AAGAGGTGTCCTGCTCTTTGAGGACTAAAGG
700144 GTGAAAGGAG
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
58 2 0.02
59 21 0.24
60 27 0.31
61 36 0.42
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (59 bp):
AAAGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTA
Found at i:700165 original size:160 final size:159
Alignment explanation
Indices: 699838--700303 Score: 763
Period size: 160 Copynumber: 2.9 Consensus size: 159
699828 TTTAGAAGGC
* * * * *
699838 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAGTTGT
1 GTCCTGCTCTTTGAGGACTAGCAA-GTGCCACCAACTTATGTGGGCTTTAAAA-G-AAGAGGTGT
*
699902 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGC
63 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGC
699967 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGT
128 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGT
699999 GTCCTGCTCTTTGAGGACTAGCAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAGAGGTGTCCT
1 GTCCTGCTCTTTGAGGACTAGCAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAGAGGTGTCCT
* * * *
700064 GCTCTTTGAGGACTAAAGGTGCCACTAACTCGTGTGGGCTTTAAAAAGAAAAAGTTGTCCTGCTC
66 GCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAGAGGTGTCCTGCTC
*
700129 TTTGAGGACTGAAGGGTGAAAGGAGAGAGT
130 TTTGAGGACTAAAGGGTGAAAGGAGAGAGT
*
700159 GTCCTGCTCTTTGAGGACTAGCAAGTGCCACCAACTTATGTGGGCTTTAAAAGACGAGGTGTCCT
1 GTCCTGCTCTTTGAGGACTAGCAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAGAGGTGTCCT
*
700224 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCTC
66 GCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCTC
700289 TTTGAGGACTAAAGG
130 TTTGAGGACTAAAGG
700304 TGCCACCAAC
Statistics
Matches: 284, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
159 50 0.18
160 160 0.56
161 71 0.25
162 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (159 bp):
GTCCTGCTCTTTGAGGACTAGCAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAGAGGTGTCCT
GCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCTCT
TTGAGGACTAAAGGGTGAAAGGAGAGAGT
Found at i:700344 original size:61 final size:61
Alignment explanation
Indices: 700147--700542 Score: 572
Period size: 61 Copynumber: 6.5 Consensus size: 61
700137 CTGAAGGGTG
* **
700147 AAAGG-AGAGAGTGTCCTGCTCTTTGAGGACTAGCAA-GTGCCACCAACTTATGTGGGCTTTA
1 AAAGGAAGAG-GTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTA
* *
700208 AAA-GACGAGGTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTA
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
700268 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTA
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
*
700328 AAAGGAAGAAGTTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTA
1 AAAGGAAG-AGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
* * *
700389 AAAGGAAGAGGTGTCCTGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTA
* * *
700451 AAAGGAAAATGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAAC-CTGTGTGGGCTTTGA
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTC-GTGTGGGCTTT-A
*
700513 AAA-GAAAAGGTGTCCTGCTCTTTGAGGACT
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACT
700543 TGAAGGGCTA
Statistics
Matches: 309, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
59 3 0.01
60 105 0.34
61 142 0.46
62 59 0.19
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (61 bp):
AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
Found at i:700368 original size:121 final size:121
Alignment explanation
Indices: 700147--700542 Score: 574
Period size: 121 Copynumber: 3.3 Consensus size: 121
700137 CTGAAGGGTG
*
700147 AAAGG-AGAGAGTGTCCTGCTCTTTGAGGACTAGCAAGTGCCACCAACTTATGTGGGCTTTAAAA
1 AAAGGAAGAG-GTGTCCTGCTCTTTGAGGACTA--AAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * *
700211 -GACG-AGGTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTA
63 GGAAGAAGTTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
*
700268 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGG
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG
700333 AAGAAGTTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTA
65 AAGAAGTTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
*
700389 AAAGGAAGAGGTGTCCTGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACT---AAAGTGCCACCAACTTGTGTGGGCTTTAAAA
*
700454 GGAA-AA-TGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAAC-CTGTGTGGGCTTTGA
63 GGAAGAAGT-TGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTC-GTGTGGGCTTT-A
*
700513 AAA-GAAAAGGTGTCCTGCTCTTTGAGGACT
1 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACT
700543 TGAAGGGCTA
Statistics
Matches: 254, Mismatches: 10, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
119 2 0.01
120 26 0.10
121 89 0.35
122 49 0.19
123 81 0.32
124 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (121 bp):
AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
AGAAGTTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTA
Found at i:706858 original size:78 final size:78
Alignment explanation
Indices: 706692--706921 Score: 370
Period size: 78 Copynumber: 2.9 Consensus size: 78
706682 AAAATAAAAT
** * * * *
706692 CGGGGTTAAAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCG-GGTTGGAGTAT
*
706757 CCCCTCGGAAATAA
65 CCCCTCGAAAATAA
*
706771 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAGATAAAACCGGGTTGGAGTATC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGTATC
706836 CCCTCGAAAATAA
66 CCCTCGAAAATAA
706849 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACC-GGGTTGGAGTAT
706914 CCCCTCGA
65 CCCCTCGA
706922 TTAAAGGAAA
Statistics
Matches: 141, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 75 0.53
79 66 0.47
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGTATC
CCCTCGAAAATAA
Found at i:706916 original size:51 final size:51
Alignment explanation
Indices: 706849--706974 Score: 150
Period size: 53 Copynumber: 2.4 Consensus size: 51
706839 TCGAAAATAA
*
706849 CGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAATATTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-TAAAGAAATTAATATTTTGA-AAATAAAAC
** *
706900 CGGGGTTGGAGTATCCCCTCGA-TTAAAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTAT-CCC-CGATTTAAA-GAAATTAATATTTTGAAAATAAAAC
706953 CGGGGTTGGAGTATCCCCGATT
1 CGGGGTTGGAGTATCCCCGATT
706975 ACGAGCAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
51 20 0.31
52 8 0.12
53 36 0.55
54 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTTAAAGAAATTAATATTTTGAAAATAAAAC
Found at i:708158 original size:26 final size:27
Alignment explanation
Indices: 708122--708178 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
708112 GAAAATCACT
708122 CCATGCCTTCA-TTTCTTATTCCATGC
1 CCATGCCTTCATTTTCTTATTCCATGC
*
708148 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTCTTATTCCATGC
708175 CCAT
1 CCAT
708179 TATCCCATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.16, C:0.33, G:0.07, T:0.44
Consensus pattern (27 bp):
CCATGCCTTCATTTTCTTATTCCATGC
Found at i:712390 original size:13 final size:13
Alignment explanation
Indices: 712372--712399 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
712362 ATACAAAGAT
712372 CAATGTATCGATA
1 CAATGTATCGATA
712385 CAATGTATCGATA
1 CAATGTATCGATA
712398 CA
1 CA
712400 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:712396 original size:33 final size:33
Alignment explanation
Indices: 712354--712419 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
712344 AAATTCCCAG
712354 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
712387 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
712420 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:713509 original size:21 final size:21
Alignment explanation
Indices: 713485--713526 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
713475 ACTAAGTCAA
* *
713485 GTCTTTTAGTTATGTATTAAT
1 GTCTCTTAATTATGTATTAAT
713506 GTCTCTTAATTATGTATTAAT
1 GTCTCTTAATTATGTATTAAT
713527 AATTGTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (21 bp):
GTCTCTTAATTATGTATTAAT
Found at i:714950 original size:24 final size:25
Alignment explanation
Indices: 714923--714986 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
714913 CAATTCACTT
*
714923 AAGTTCAT-CCATCCTTAACCTTTC
1 AAGTACATCCCATCCTTAACCTTTC
*
714947 AAGTACTTCCCATCCTTAACCTTTC
1 AAGTACATCCCATCCTTAACCTTTC
* *
714972 AAGCACTTCCCATCC
1 AAGTACATCCCATCC
714987 ATAGTTGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.25, C:0.38, G:0.05, T:0.33
Consensus pattern (25 bp):
AAGTACATCCCATCCTTAACCTTTC
Found at i:714959 original size:25 final size:25
Alignment explanation
Indices: 714931--714986 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
714921 TTAAGTTCAT
*
714931 CCATCCTTAACCTTTCAAGTACTTC
1 CCATCCTTAACCTTTCAAGCACTTC
714956 CCATCCTTAACCTTTCAAGCACTTC
1 CCATCCTTAACCTTTCAAGCACTTC
714981 CCATCC
1 CCATCC
714987 ATAGTTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.41, G:0.04, T:0.32
Consensus pattern (25 bp):
CCATCCTTAACCTTTCAAGCACTTC
Found at i:715273 original size:9 final size:8
Alignment explanation
Indices: 715250--715279 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
715240 AAATCAAAGA
715250 TGGGCACT
1 TGGGCACT
715258 TGGGCACT
1 TGGGCACT
715266 TAGGGCACT
1 T-GGGCACT
715275 TGGGC
1 TGGGC
715280 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.23, G:0.40, T:0.23
Consensus pattern (8 bp):
TGGGCACT
Found at i:715989 original size:10 final size:9
Alignment explanation
Indices: 715965--716195 Score: 50
Period size: 9 Copynumber: 25.8 Consensus size: 9
715955 AAAATTTTAA
715965 ATAAAAATT
1 ATAAAAATT
715974 CA-AAAAATT
1 -ATAAAAATT
715983 ATTAAAATATT
1 A-TAAAA-ATT
715994 AT-AAAA--
1 ATAAAAATT
716000 ATAAAAATT
1 ATAAAAATT
* *
716009 CA-GAAAGTT
1 -ATAAAAATT
*
716018 ACAACAAATT
1 ATAA-AAATT
716028 ATAAAGAATCT
1 ATAAA-AAT-T
*
716039 AT-AAATTT
1 ATAAAAATT
* *
716047 AAAAAAAAT
1 ATAAAAATT
*
716056 ATTAGAAATT
1 A-TAAAAATT
*
716066 -TAAAAA-A
1 ATAAAAATT
716073 ATAAAAATT
1 ATAAAAATT
716082 CA-AAAAATGT
1 -ATAAAAAT-T
*
716092 -TCTAAAATT
1 AT-AAAAATT
*
716101 ATAAAAATA
1 ATAAAAATT
*
716110 AAAATGAAATT
1 ATAA--AAATT
716121 CA-AGAAAATT
1 -ATA-AAAATT
*
716131 ATAAACATT
1 ATAAAAATT
716140 -TATAAAA-T
1 ATA-AAAATT
*
716148 ACAAAAAATT
1 A-TAAAAATT
716158 ATAAAAA-T
1 ATAAAAATT
716166 AT--AAATT
1 ATAAAAATT
716173 CA-AAAAA-T
1 -ATAAAAATT
716181 AT-AAAATT
1 ATAAAAATT
716189 ATAAAAA
1 ATAAAAA
716196 AAATTTAAAA
Statistics
Matches: 161, Mismatches: 24, Indels: 73
0.62 0.09 0.28
Matches are distributed among these distances:
6 5 0.03
7 10 0.06
8 27 0.17
9 64 0.40
10 41 0.25
11 12 0.07
12 2 0.01
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:716009 original size:35 final size:34
Alignment explanation
Indices: 715963--716114 Score: 130
Period size: 35 Copynumber: 4.3 Consensus size: 34
715953 TAAAAATTTT
715963 AAATAAAAATTCAAAAAATTATTAAAATATTATAA
1 AAATAAAAATTCAAAAAATTATTAAAA-ATTATAA
* * *
715998 AAATAAAAATTCAGAAAGTTA-CAACAAATTATAA
1 AAATAAAAATTCAAAAAATTATTAA-AAATTATAA
* * * * *
716032 AGAATCTATAAATTTAAAAAAAATATTAGAAATTTAAAA
1 A-AA--TA-AAAATTCAAAAAATTATTA-AAAATTATAA
716071 AAATAAAAATTCAAAAAATGT-TCT-AAAATTATAA
1 AAATAAAAATTCAAAAAAT-TAT-TAAAAATTATAA
716105 AAATAAAAAT
1 AAATAAAAAT
716115 GAAATTCAAG
Statistics
Matches: 92, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
34 28 0.30
35 35 0.38
36 4 0.04
37 2 0.02
38 13 0.14
39 9 0.10
40 1 0.01
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (34 bp):
AAATAAAAATTCAAAAAATTATTAAAAATTATAA
Found at i:716161 original size:17 final size:17
Alignment explanation
Indices: 716139--716241 Score: 57
Period size: 18 Copynumber: 5.5 Consensus size: 17
716129 TTATAAACAT
716139 TTATAAAATACAAAAAA
1 TTATAAAATACAAAAAA
716156 TTATAAAAATATAAATTCAAAAAA
1 TTAT--AAA-AT--A--CAAAAAA
*
716180 -TATAAAATTATAAAAAAAA
1 TTAT-AAA--ATACAAAAAA
*
716199 TT-TAAAAAACAAAAAAA
1 TTATAAAATAC-AAAAAA
*
716216 TCATAAAATACAAAAATA
1 TTATAAAATACAAAAA-A
716234 TTATAAAA
1 TTATAAAA
716242 ATGTACAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
16 2 0.03
17 16 0.24
18 18 0.26
19 10 0.15
20 3 0.04
21 1 0.01
22 5 0.07
23 6 0.09
24 7 0.10
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (17 bp):
TTATAAAATACAAAAAA
Found at i:716163 original size:8 final size:8
Alignment explanation
Indices: 716125--716194 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
716115 GAAATTCAAG
716125 AAAATTAT
1 AAAATTAT
716133 AAACATTTAT
1 AAA-A-TTAT
* *
716143 AAAATACAA
1 AAAAT-TAT
716152 AAAATTAT
1 AAAATTAT
*
716160 AAAAATAT
1 AAAATTAT
716168 -AAATTCA-
1 AAAATT-AT
*
716175 AAAAATAT
1 AAAATTAT
716183 AAAATTAT
1 AAAATTAT
716191 AAAA
1 AAAA
716195 AAAATTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
7 5 0.10
8 28 0.58
9 8 0.17
10 7 0.15
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATTAT
Found at i:716164 original size:18 final size:18
Alignment explanation
Indices: 716139--716243 Score: 67
Period size: 17 Copynumber: 5.6 Consensus size: 18
716129 TTATAAACAT
716139 TTAT-AAAATACAAAAAA
1 TTATAAAAATACAAAAAA
716156 TTATAAAAATATAAATTCAAAAAA
1 TTAT-AAAA-AT--A--CAAAAAA
*
716180 -TATAAAATTATAAAAAAAA
1 TTATAAAA--ATACAAAAAA
716199 TT-TAAAAA-ACAAAAAAA
1 TTATAAAAATAC-AAAAAA
*
716216 TCAT-AAAATACAAAAATA
1 TTATAAAAATACAAAAA-A
716234 TTATAAAAAT
1 TTATAAAAAT
716244 GTACAAAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
16 1 0.01
17 21 0.30
18 7 0.10
19 19 0.27
20 3 0.04
21 1 0.01
22 5 0.07
23 6 0.09
24 7 0.10
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
TTATAAAAATACAAAAAA
Found at i:716183 original size:23 final size:24
Alignment explanation
Indices: 716107--716193 Score: 88
Period size: 24 Copynumber: 3.5 Consensus size: 24
716097 AATTATAAAA
*
716107 ATAAAAAT-GAAATTCAAGAAAATT
1 ATAAAAATATAAATTCAA-AAAATT
* *
716131 ATAAACATTTATAAAATACAAAAAATT
1 ATAAA-A-ATAT-AAATTCAAAAAATT
716158 ATAAAAATATAAATTCAAAAAA-T
1 ATAAAAATATAAATTCAAAAAATT
*
716181 ATAAAATTATAAA
1 ATAAAAATATAAA
716194 AAAAATTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 13 0.25
24 16 0.30
25 4 0.08
26 2 0.04
27 11 0.21
28 7 0.13
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAAAAATATAAATTCAAAAAATT
Found at i:716194 original size:15 final size:14
Alignment explanation
Indices: 716152--716212 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
716142 TAAAATACAA
716152 AAAATTATAAAAAT
1 AAAATTATAAAAAT
*
716166 ATAAATTCAAAAAATAT
1 A-AAATT-ATAAAA-AT
716183 AAAATTATAAAAA-
1 AAAATTATAAAAAT
* *
716196 AAATTTA-AAAAAC
1 AAAATTATAAAAAT
716209 AAAA
1 AAAA
716213 AAATCATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 5 0.13
13 9 0.23
14 2 0.05
15 10 0.26
16 10 0.26
17 3 0.08
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATTATAAAAAT
Found at i:716243 original size:44 final size:45
Alignment explanation
Indices: 716176--716269 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 45
716166 ATAAATTCAA
* * *
716176 AAAATATAAAATTATAAAAAAAATTTA-AAAA-ACAAAAAAATCAT
1 AAAATACAAAAATATAAAAAAAATGTACAAAATA-AAAAAAATCAT
* * *
716220 AAAATACAAAAATATTATAAAAATGTACAAAATTAAAAAAAATTAT
1 AAAATACAAAAATATAAAAAAAATGTACAAAA-TAAAAAAAATCAT
716266 AAAA
1 AAAA
716270 AGTTTTTATC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
44 22 0.54
45 4 0.10
46 14 0.34
47 1 0.02
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (45 bp):
AAAATACAAAAATATAAAAAAAATGTACAAAATAAAAAAAATCAT
Found at i:716383 original size:29 final size:27
Alignment explanation
Indices: 716351--716441 Score: 62
Period size: 28 Copynumber: 3.2 Consensus size: 27
716341 TTTAATTTTT
716351 ATTTTTAAAGTTTTTATAATTTTTTTGAA
1 ATTTTT-AA-TTTTTATAATTTTTTTGAA
* * *
716380 ATTTATTGACTTTTTATAA-GTTTTTGCA
1 ATTT-TT-AATTTTTATAATTTTTTTGAA
*
716408 ATTTTCTCAATTTTTAT--TTTTATTTTAA
1 ATTTT-T-AATTTTTATAATTTT-TTTGAA
716436 ATTTTT
1 ATTTTT
716442 TTTGTGAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
27 4 0.08
28 29 0.59
29 13 0.27
30 3 0.06
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (27 bp):
ATTTTTAATTTTTATAATTTTTTTGAA
Found at i:716434 original size:68 final size:67
Alignment explanation
Indices: 716344--716798 Score: 256
Period size: 68 Copynumber: 6.6 Consensus size: 67
716334 TTCAAAATTT
*
716344 AATTTTTATTTTTAAAGTTTTTATAATTTTTTTGAAATTTATTGACTTTTTATAAGTTTTTGCAA
1 AATTTTTATTTTT--A-TTTTTATAATTTTTTTGAAATTTATTGA-TTTTTATAA-TTTTTACAA
* *
716409 TTTTCTC
61 TTTTATG
* * *
716416 AATTTTTATTTTTA-TTTTA-AATTTTTTTTGTGAATTTTACAT-ATTTTTATAATTTTTATAAT
1 AATTTTTATTTTTATTTTTATAA--TTTTTT-TGAAATTTA-TTGATTTTTATAATTTTTACAAT
716478 TTTAT-
62 TTTATG
* * * * * * * **
716483 AATTTTTATTTTTATTTTTTTTACTTTTTAT-AAGTTTTCTTAATTTTATATATTTTTTGTAATT
1 AATTTTTATTTTTA-TTTTTATAATTTTTTTGAA-ATTTATTGATTTT-TATAATTTTTACAATT
716547 TTATG
63 TTATG
* * * * *
716552 AATTTTTATTTTAAATTTTTATATTTTTTTTGAATTTTATAGATTTTTTATAATATTTTACAATG
1 AATTTTTATTTT-TATTTTTATAATTTTTTTGAAATTTATTGA-TTTTTATAAT-TTTTACAATT
*
716617 TTCTG
63 TTATG
* *
716622 AA-TTTTATTTTTATTTTT-TAA-ATTTTTGAAAATTTTATTGATTTTTTATAATTTTTA-TATG
1 AATTTTTATTTTTATTTTTATAATTTTTTTG-AAA-TTTATTGA-TTTTTATAATTTTTACAAT-
*
716683 CTTTTTG
62 -TTTATG
** *
716690 AATTTTATAGATTTTTTTATTTTTATAA-TTTTTT--AATGTGTATATTTTTTTTATAATTTTCA
1 AATTTT-T--A--TTTTTATTTTTATAATTTTTTTGAAAT-T-TAT-TGATTTTTATAATTTTTA
*
716752 GAATTTT-T-
58 CAATTTTATG
* *
716760 -ATTTTTATTTTTAAATTTTTTATATTTTTTTTAAAATTT
1 AATTTTTATTTTT--A-TTTTTATAATTTTTTTGAAATTT
716799 TTTATTGTAA
Statistics
Matches: 309, Mismatches: 38, Indels: 76
0.73 0.09 0.18
Matches are distributed among these distances:
64 5 0.02
66 13 0.04
67 43 0.14
68 78 0.25
69 73 0.24
70 35 0.11
71 3 0.01
72 20 0.06
73 17 0.06
74 14 0.05
75 8 0.03
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (67 bp):
AATTTTTATTTTTATTTTTATAATTTTTTTGAAATTTATTGATTTTTATAATTTTTACAATTTTA
TG
Found at i:716465 original size:69 final size:66
Alignment explanation
Indices: 716390--716638 Score: 211
Period size: 69 Copynumber: 3.7 Consensus size: 66
716380 ATTTATTGAC
* * *
716390 TTTTTATAAGTTTTTGCAATTTTCTCAATTTTTATTTTTATTTTAAATTTTTTTTGTGAATTTTA
1 TTTTTATAA-TTTTTACAATTTTATGAATTTTTATTTTTATTTT-AATTTTTTTT-TGAATTTTA
716455 CATA
63 CATA
* *
716459 TTTTTATAATTTTTATAATTTTAT-AATTTTTATTTTTATTTT--TTTTACTTTTTATAAGTTTT
1 TTTTTATAATTTTTACAATTTTATGAATTTTTATTTTTATTTTAATTTT--TTTTT-GAA-TTTT
*
716521 -CTTAA
62 ACAT-A
* ** * *
716526 TTTTATATATTTTTTGTAATTTTATGAATTTTTATTTTAAATTTTTATATTTTTTTTGAATTTTA
1 TTTT-TATAATTTTTACAATTTTATGAATTTTTATTTT-TATTTTAAT-TTTTTTTTGAATTTTA
* *
716591 TAGA
63 CATA
* *
716595 TTTTTTATAATATTTTACAATGTTCTGAA-TTTTATTTTTATTTT
1 -TTTTTATAAT-TTTTACAATTTTATGAATTTTTATTTTTATTTT
716639 TTAAATTTTT
Statistics
Matches: 148, Mismatches: 18, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
64 4 0.03
65 1 0.01
66 8 0.05
67 27 0.18
68 35 0.24
69 40 0.27
70 24 0.16
71 5 0.03
72 1 0.01
73 3 0.02
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (66 bp):
TTTTTATAATTTTTACAATTTTATGAATTTTTATTTTTATTTTAATTTTTTTTTGAATTTTACAT
A
Found at i:716470 original size:9 final size:9
Alignment explanation
Indices: 716458--716761 Score: 97
Period size: 9 Copynumber: 34.9 Consensus size: 9
716448 AATTTTACAT
716458 ATTTTTATA
1 ATTTTTATA
716467 ATTTTTATA
1 ATTTTTATA
716476 A-TTTTATA
1 ATTTTTATA
716484 A-TTTT-T-
1 ATTTTTATA
716490 ATTTTTAT-
1 ATTTTTATA
*
716498 -TTTTTTTA
1 ATTTTTATA
*
716506 CTTTTTATA
1 ATTTTTATA
716515 AGTTTTCT-TA
1 A-TTTT-TATA
716525 ATTTTATATA
1 ATTTT-TATA
* *
716535 TTTTTTGTA
1 ATTTTTATA
716544 A-TTTTATGA
1 ATTTTTAT-A
716553 A-TTTT-T-
1 ATTTTTATA
716559 A-TTTTA-A
1 ATTTTTATA
716566 ATTTTTATA
1 ATTTTTATA
* *
716575 TTTTTTTTGA
1 ATTTTTAT-A
716585 A-TTTTATA
1 ATTTTTATA
716593 GATTTTTTATA
1 -A-TTTTTATA
*
716604 ATATTTTACA
1 AT-TTTTATA
* *
716614 ATGTTCT-GA
1 AT-TTTTATA
716623 A--TTT-T-
1 ATTTTTATA
716628 ATTTTTAT-
1 ATTTTTATA
716636 -TTTTTA-A
1 ATTTTTATA
716643 ATTTTTGA-A
1 ATTTTT-ATA
*
716652 AATTTTATTGA
1 ATTTTTA-T-A
*
716663 TTTTTTATA
1 ATTTTTATA
716672 ATTTTTAT-
1 ATTTTTATA
716680 ATGCTTTT-TGA
1 AT--TTTTAT-A
716691 A-TTTTATA
1 ATTTTTATA
*
716699 GATTTTT-TT
1 -ATTTTTATA
716708 ATTTTTATA
1 ATTTTTATA
716717 ATTTTT-TA
1 ATTTTTATA
* *
716725 ATGTGTATATT
1 AT-T-TTTATA
*
716736 TTTTTTATA
1 ATTTTTATA
* *
716745 ATTTTCAGA
1 ATTTTTATA
716754 ATTTTTAT
1 ATTTTTAT
716762 TTTTATTTTT
Statistics
Matches: 224, Mismatches: 34, Indels: 74
0.67 0.10 0.22
Matches are distributed among these distances:
5 1 0.00
6 8 0.04
7 21 0.09
8 49 0.22
9 90 0.40
10 38 0.17
11 17 0.08
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:716503 original size:23 final size:22
Alignment explanation
Indices: 716467--716513 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
716457 TATTTTTATA
716467 ATTTTTATAATTTTATAATTTTT
1 ATTTTTATAATTTT-TAATTTTT
** *
716490 ATTTTTATTTTTTTTACTTTTT
1 ATTTTTATAATTTTTAATTTTT
716512 AT
1 AT
716514 AAGTTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTTTATAATTTTTAATTTTT
Found at i:716569 original size:41 final size:42
Alignment explanation
Indices: 716524--716602 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
716514 AAGTTTTCTT
716524 AATTTTATATATTTTTTGT-AATTTTAT-GAATTTTTATTTTA
1 AATTTT-TATATTTTTTGTGAATTTTATAGAATTTTTATTTTA
* *
716565 AATTTTTATATTTTTTTTGAATTTTATAGATTTTTTAT
1 AATTTTTATATTTTTTGTGAATTTTATAGAATTTTTAT
716603 AATATTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 11 0.32
41 14 0.41
42 9 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (42 bp):
AATTTTTATATTTTTTGTGAATTTTATAGAATTTTTATTTTA
Found at i:716600 original size:19 final size:19
Alignment explanation
Indices: 716524--716600 Score: 52
Period size: 19 Copynumber: 3.9 Consensus size: 19
716514 AAGTTTTCTT
*
716524 AATTTTATATA-TTTTTTG
1 AATTTTATAGATTTTTTTG
*
716542 TAATTTTAT-GAATTTTTATTTTA
1 -AATTTTATAG-A--TTT-TTTTG
*
716565 AATTTTTATA-TTTTTTTTG
1 AA-TTTTATAGATTTTTTTG
716584 AATTTTATAGATTTTTT
1 AATTTTATAGATTTTTT
716601 ATAATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
18 7 0.16
19 21 0.47
20 3 0.07
22 4 0.09
23 10 0.22
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
AATTTTATAGATTTTTTTG
Found at i:716665 original size:19 final size:19
Alignment explanation
Indices: 716643--716705 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
716633 TATTTTTTAA
716643 ATTTTTGAAAATTTTATTG
1 ATTTTTGAAAATTTTATTG
* *
716662 ATTTTTTATAATTTTTATATG
1 ATTTTTGA-AAATTTTAT-TG
* *
716683 CTTTTTG--AATTTTATAG
1 ATTTTTGAAAATTTTATTG
716700 ATTTTT
1 ATTTTT
716706 TTATTTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 6 0.17
18 7 0.20
19 7 0.20
20 8 0.23
21 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (19 bp):
ATTTTTGAAAATTTTATTG
Found at i:716695 original size:138 final size:136
Alignment explanation
Indices: 716343--716680 Score: 321
Period size: 137 Copynumber: 2.5 Consensus size: 136
716333 TTTCAAAATT
** * * *
716343 TAATTTTTATTTTTAAAGTTTTTATAATTTTTTTGAAA-TTTATTGACTTTT-TATAAGTTTTTG
1 TAATTTTTATTTTT-ATTTTTTTA-AATTTTTAT-AAATTTTATT-AATTTTATATAA-TTTTTA
* * * * *
716406 CAATTTTCTCAATTTTTATTTTTATTTTAAATTTTTTTTGTGAATTTTACATATTTTTATAATTT
61 TAATTTTATGAATTTTTATTTTAATTTTAAATTTTTTTTGTGAATTTTACAGATTTTTATAATTT
* *
716471 TTATAATTTTA
126 TTACAATGTTA
* * * * * *
716482 TAATTTTTATTTTTATTTTTTTTACTTTTTATAAGTTTTCTTAATTTTATATATTTTTTGTAATT
1 TAATTTTTATTTTTATTTTTTTAAATTTTTATAAATTTTATTAATTTTATATAATTTTTATAATT
* *
716547 TTATGAATTTTTATTTTAAATTTT-TATATTTTTTT-TGAATTTTATAGATTTTTTATAATATTT
66 TTATGAATTTTTATTTT-AATTTTAAAT-TTTTTTTGTGAATTTTACAGA-TTTTTATAAT-TTT
*
716610 TACAATGTTC
127 TACAATGTTA
* *
716620 TGAA-TTTTATTTTTA-TTTTTTAAATTTTTGA-AAATTTTATTGATTTTTTATAATTTTTATA
1 T-AATTTTTATTTTTATTTTTTTAAATTTTT-ATAAATTTTATTAATTTTATATAATTTTTATA
716681 TGCTTTTTGA
Statistics
Matches: 164, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
136 45 0.27
137 74 0.45
138 29 0.18
139 16 0.10
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (136 bp):
TAATTTTTATTTTTATTTTTTTAAATTTTTATAAATTTTATTAATTTTATATAATTTTTATAATT
TTATGAATTTTTATTTTAATTTTAAATTTTTTTTGTGAATTTTACAGATTTTTATAATTTTTACA
ATGTTA
Found at i:716759 original size:21 final size:19
Alignment explanation
Indices: 716733--716780 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
716723 TAATGTGTAT
716733 ATTTTTTTTATAATTTTCAGA
1 ATTTTTTTT-TAATTTTCA-A
* *
716754 ATTTTTATTTTTATTTTTAA
1 ATTTTT-TTTTAATTTTCAA
716774 ATTTTTT
1 ATTTTTT
716781 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 13 0.54
22 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTTTTAATTTTCAA
Found at i:716776 original size:20 final size:20
Alignment explanation
Indices: 716753--716804 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
716743 TAATTTTCAG
*
716753 AATTTTTATTTTTATTTTTAA
1 AATTTTTATATTT-TTTTTAA
*
716774 ATTTTTTATATTTTTTTTAA
1 AATTTTTATATTTTTTTTAA
716794 AATTTTT-TATT
1 AATTTTTATATT
716805 GTAAAAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
AATTTTTATATTTTTTTTAA
Found at i:716781 original size:21 final size:20
Alignment explanation
Indices: 716755--716804 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
716745 ATTTTCAGAA
*
716755 TTTTTATTTTTATTTTTAAAT
1 TTTTTATTTTT-TTTTAAAAT
716776 TTTTTATATTTTTTTTAAAAT
1 TTTTTAT-TTTTTTTTAAAAT
716797 TTTTTATT
1 TTTTTATT
716805 GTAAAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTATTTTTTTTTAAAAT
Found at i:716786 original size:29 final size:29
Alignment explanation
Indices: 716703--716788 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
716693 TTTATAGATT
* *
716703 TTTTTATTTTTATAATTTTTTAATGTGTA
1 TTTTTATTTTTATAATTTTTTAATTTTTA
* **
716732 TATTT-TTTTTATAATTTTCAGAATTTTTA
1 TTTTTATTTTTATAATTTT-TTAATTTTTA
716761 TTTTTATTTTTA-AATTTTTTATATTTTT
1 TTTTTATTTTTATAATTTTTTA-ATTTTT
716789 TTTAAAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 14 0.30
29 26 0.57
30 6 0.13
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.71
Consensus pattern (29 bp):
TTTTTATTTTTATAATTTTTTAATTTTTA
Found at i:722597 original size:22 final size:22
Alignment explanation
Indices: 722569--722610 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
722559 ACACACATTA
722569 AACTCATTCATTATATATATTG
1 AACTCATTCATTATATATATTG
722591 AACTCATTCATTATATATAT
1 AACTCATTCATTATATATAT
722611 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTCATTCATTATATATATTG
Found at i:726759 original size:2 final size:2
Alignment explanation
Indices: 726752--726781 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
726742 TGAGATATGA
726752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
726782 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:727845 original size:16 final size:16
Alignment explanation
Indices: 727824--727867 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
727814 AAAATGATAA
727824 GAATTATTTTAAGTTT
1 GAATTATTTTAAGTTT
727840 GAATTATTTTAAGTTT
1 GAATTATTTTAAGTTT
*
727856 AAATTATTTTAA
1 GAATTATTTTAA
727868 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
GAATTATTTTAAGTTT
Found at i:734925 original size:13 final size:13
Alignment explanation
Indices: 734906--734944 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
734896 ACTATTTATG
734906 ATGTATCGATACA
1 ATGTATCGATACA
*
734919 CTGTATCGATACA
1 ATGTATCGATACA
734932 ATGTATCGATACA
1 ATGTATCGATACA
734945 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:734996 original size:14 final size:14
Alignment explanation
Indices: 734973--735039 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 14
734963 GATTTTTAAC
* *
734973 GATACATGAATAGT
1 GATACGTGAACAGT
734987 GATACGTGAACA--
1 GATACGTGAACAGT
734999 G-T--GTGAACAGT
1 GATACGTGAACAGT
735010 GATACGTGAACAGT
1 GATACGTGAACAGT
*
735024 GATACATGAA-AGT
1 GATACGTGAACAGT
735037 GAT
1 GAT
735040 GTATCGATAC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 7 0.16
11 2 0.04
12 2 0.04
13 6 0.13
14 28 0.62
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (14 bp):
GATACGTGAACAGT
Found at i:735010 original size:23 final size:23
Alignment explanation
Indices: 734979--735024 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
734969 TAACGATACA
*
734979 TGAATAGTGATACGTGAACAGTG
1 TGAACAGTGATACGTGAACAGTG
735002 TGAACAGTGATACGTGAACAGTG
1 TGAACAGTGATACGTGAACAGTG
735025 ATACATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (23 bp):
TGAACAGTGATACGTGAACAGTG
Found at i:735069 original size:10 final size:10
Alignment explanation
Indices: 735050--735080 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
735040 GTATCGATAC
735050 ATGAACAGTG
1 ATGAACAGTG
*
735060 ATGAATAGTG
1 ATGAACAGTG
735070 ATGAACAGTG
1 ATGAACAGTG
735080 A
1 A
735081 AAAAAATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:735181 original size:53 final size:53
Alignment explanation
Indices: 735107--735243 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
735097 CTACTACCAA
* *
735107 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTATTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
735160 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
735213 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
735244 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 64 0.80
54 16 0.20
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:735276 original size:20 final size:20
Alignment explanation
Indices: 735213--735283 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
735203 GCCAATGTCC
**
735213 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
735233 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
735253 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
735273 TGTATCGATAC
1 TGTATCGATAC
735284 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:735354 original size:21 final size:21
Alignment explanation
Indices: 735324--735363 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
735314 TCAACCTTGA
735324 GTATTAATACCAATA-GTATAT
1 GTATTAATA-CAATACGTATAT
*
735345 GTATTGATACAATACGTAT
1 GTATTAATACAATACGTAT
735364 TTTTACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
GTATTAATACAATACGTATAT
Found at i:738295 original size:32 final size:31
Alignment explanation
Indices: 738197--738370 Score: 131
Period size: 32 Copynumber: 5.5 Consensus size: 31
738187 CCACTAACGG
*
738197 GTTACAATAGTTAGCATA-GCCTCACTAA-CA
1 GTTACAATAGTTAGCATAGGCCT-ACTAATGA
* * *
738227 GATTACAATAGTTATCATAAGCCTTACTAACGA
1 G-TTACAATAGTTAGCATAGGCC-TACTAATGA
* *
738260 GTTACAATAGTTAGCATAGGCCTAGTAAATAA
1 GTTACAATAGTTAGCATAGGCCTACT-AATGA
* * * *
738292 GTTAAAATTGTTAACATAGGTCTAGCTAATGA
1 GTTACAATAGTTAGCATAGGCCTA-CTAATGA
* *
738324 GTTACAATTA-TAAGCATAGGGGCTTACTAACT-A
1 GTTACAA-TAGTTAGCATA--GGCCTACTAA-TGA
738357 GTTACAATAGTTAG
1 GTTACAATAGTTAG
738371 TGAAAATTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 19
0.74 0.13 0.12
Matches are distributed among these distances:
30 1 0.01
31 19 0.17
32 68 0.60
33 20 0.18
34 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (31 bp):
GTTACAATAGTTAGCATAGGCCTACTAATGA
Found at i:740741 original size:20 final size:21
Alignment explanation
Indices: 740716--740763 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
740706 ATACAATTAG
* *
740716 CGATACATAAGT-GAATGTAT
1 CGATACATAACTAAAATGTAT
*
740736 CGATACATATCTAAAATGTAT
1 CGATACATAACTAAAATGTAT
740757 CGATACA
1 CGATACA
740764 GGACCATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
CGATACATAACTAAAATGTAT
Found at i:740797 original size:41 final size:40
Alignment explanation
Indices: 740748--740886 Score: 137
Period size: 41 Copynumber: 3.4 Consensus size: 40
740738 ATACATATCT
740748 AAAATGTATCGATACAGGACCATGTCGCATTCTGATCAAA
1 AAAATGTATCGATACAGGACCATGTCGCATTCTGATCAAA
* *
740788 AAAATTGTATCGATACATAAGTGA--ATGTATCG-ATACAT-ATC--T
1 AAAA-TGTATCGATAC---AG-GACCATG--TCGCATTC-TGATCAAA
740830 AAAATGTATCGATACAGGACCATGTCGCATTCTGATCAAA
1 AAAATGTATCGATACAGGACCATGTCGCATTCTGATCAAA
740870 AAAATTGTATCGATACA
1 AAAA-TGTATCGATACA
740887 TAAGTAAATG
Statistics
Matches: 80, Mismatches: 4, Indels: 29
0.71 0.04 0.26
Matches are distributed among these distances:
37 6 0.08
38 8 0.10
39 3 0.04
40 8 0.10
41 34 0.43
42 4 0.05
43 3 0.04
44 8 0.10
45 6 0.08
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (40 bp):
AAAATGTATCGATACAGGACCATGTCGCATTCTGATCAAA
Found at i:740814 original size:82 final size:82
Alignment explanation
Indices: 740716--740926 Score: 379
Period size: 82 Copynumber: 2.6 Consensus size: 82
740706 ATACAATTAG
740716 CGATACATAAGTGAATGTATCGATACATATCTAAAATGTATCGATACAGGACCATGTCGCATTCT
1 CGATACATAAGTGAATGTATCGATACATATCTAAAATGTATCGATACAGGACCATGTCGCATTCT
740781 GATCAAAAAAATTGTAT
66 GATCAAAAAAATTGTAT
740798 CGATACATAAGTGAATGTATCGATACATATCTAAAATGTATCGATACAGGACCATGTCGCATTCT
1 CGATACATAAGTGAATGTATCGATACATATCTAAAATGTATCGATACAGGACCATGTCGCATTCT
740863 GATCAAAAAAATTGTAT
66 GATCAAAAAAATTGTAT
* ** *
740880 CGATACATAAGTAAATGTATCGATACAT-TCCCAGATGTATCGATACA
1 CGATACATAAGTGAATGTATCGATACATATCTAAAATGTATCGATACA
740927 ATTTGCTTTG
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 16 0.13
82 109 0.87
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.29
Consensus pattern (82 bp):
CGATACATAAGTGAATGTATCGATACATATCTAAAATGTATCGATACAGGACCATGTCGCATTCT
GATCAAAAAAATTGTAT
Found at i:740837 original size:21 final size:21
Alignment explanation
Indices: 740788--740845 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
740778 TCTGATCAAA
*
740788 AAAATTGTATCGATACATAAGT
1 AAAA-TGTATCGATACATAACT
* *
740810 -GAATGTATCGATACATATCT
1 AAAATGTATCGATACATAACT
740830 AAAATGTATCGATACA
1 AAAATGTATCGATACA
740846 GGACCATGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (21 bp):
AAAATGTATCGATACATAACT
Found at i:748672 original size:14 final size:15
Alignment explanation
Indices: 748636--748671 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
748626 ATATGGGGAG
748636 CCTTTTTCTTTCTCT
1 CCTTTTTCTTTCTCT
748651 CCTTTTTCTTTCTCT
1 CCTTTTTCTTTCTCT
748666 CCTTTT
1 CCTTTT
748672 CAAAATAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CCTTTTTCTTTCTCT
Found at i:749180 original size:2 final size:2
Alignment explanation
Indices: 749173--749199 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
749163 ATGGAAGCGA
749173 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
749200 ATGGTGGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.